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Syncing main with changes from release/v1.3.0 #32

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merged 46 commits into from
Dec 13, 2021
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sujaypatil96
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After this PR is merged, create release v1.3.0 from the main branch.

gaurav and others added 30 commits December 7, 2021 01:12
This is because the CCDH Terminology Service endpoint changed.
gaurav and others added 16 commits December 9, 2021 17:49
This is because @cached_property isn't supported in Python 3.7, blech.
This PR adds a "dummy sheet test" (#8) -- it runs sheet2linkml with a Google Sheet I've created solely for testing at https://docs.google.com/spreadsheets/d/1HpsF12vl_CeIzV2TEtANeysnh7cy6YOUDdv6fMXT00I/edit#gid=1810442705, and ensures that the output is identical to the schema generated on previous runs, which is included in this PR.

In addition to this, this PR also fixes some minor bugs found along with the way:
- The CCDH Terminology Service enumeration endpoint changed its format, so we have to modify our API to match it.
- The CCDH Terminology Service now returns 404s if the field doesn't exist or is not an enumeration, so we modify our code to catch that possibility.
- Fixes #10 by allowing the use of [Google API Service Accounts in an environmental variable](https://pygsheets.readthedocs.io/en/stable/authorization.html#service-account), allowing testing on GitHub Actions.
- Added `pytest` to support testing.
- Added a command line option to set the Google Sheet ID.
- Added checks to ensure that the `logging_config` and `google_sheet_id` command line arguments are set before using them.
- Made sheet2linkml explicitly set the error code to `0` in case of successful execution.
- Replaced a stray `print()` with `logging.debug()`.
@sujaypatil96 sujaypatil96 requested a review from gaurav December 10, 2021 23:15
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Looks good to me! Thanks so much, Sujay!

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3 participants